GREMLIN Database
RL2 - 50S ribosomal protein L2
UniProt: P42919 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 277 (273)
Sequences: 2461 (987)
Seq/√Len: 59.7

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
76_G94_I3.7181.00
150_K153_Q3.5141.00
79_A95_N3.1641.00
72_D189_R3.0511.00
26_T80_T3.0191.00
164_V172_V2.9341.00
53_H219_T2.9271.00
172_V186_S2.8801.00
143_N152_G2.8311.00
139_T192_I2.7591.00
223_S240_P2.6511.00
141_V164_V2.6361.00
155_V162_A2.6001.00
141_V174_V2.5681.00
58_H213_W2.5481.00
216_I219_T2.5461.00
144_I162_A2.5391.00
94_I116_I2.3701.00
133_I187_A2.3551.00
174_V184_I2.3491.00
108_K198_E2.3101.00
37_L60_R2.2001.00
105_L152_G2.1741.00
70_D102_R2.1081.00
110_I116_I2.1051.00
129_A189_R2.0931.00
88_S200_H2.0931.00
71_K98_D2.0811.00
253_P257_F2.0801.00
262_K266_S2.0501.00
44_N50_T2.0421.00
173_L181_V2.0411.00
243_R247_M2.0361.00
241_I255_L2.0031.00
194_Q198_E1.9991.00
111_Q114_T1.9691.00
71_K100_E1.9061.00
54_Q216_I1.8781.00
170_K185_L1.8491.00
135_I192_I1.8181.00
205_I211_S1.8050.99
248_S252_K1.7880.99
9_T13_R1.7860.99
95_N101_K1.7340.99
27_D80_T1.7050.99
131_P134_N1.6660.99
51_V219_T1.6630.99
211_S214_K1.6520.99
77_R95_N1.6390.99
19_S90_N1.6380.99
107_P110_I1.6270.99
6_Y18_T1.6240.99
19_S203_I1.6000.99
144_I174_V1.5980.99
154_L184_I1.5750.99
35_A64_V1.5750.99
78_V110_I1.5730.99
40_K54_Q1.5730.99
92_A106_A1.5580.98
254_T257_F1.5570.98
223_S239_A1.5550.98
114_T125_K1.5540.98
13_R16_M1.5510.98
30_E101_K1.5290.98
75_P115_E1.5080.98
240_P255_L1.5070.98
77_R115_E1.5070.98
205_I214_K1.4920.98
119_G122_A1.4860.98
166_G173_L1.4850.98
108_K194_Q1.4820.98
167_K186_S1.4580.98
223_S241_I1.4430.98
90_N196_G1.4430.98
73_G119_G1.4370.97
78_V94_I1.4350.97
232_H247_M1.4320.97
122_A130_L1.4280.97
261_K267_D1.4280.97
72_D118_S1.4240.97
146_L184_I1.4190.97
79_A101_K1.4180.97
89_A195_V1.3940.97
241_I245_S1.3850.97
173_L183_M1.3770.97
34_L61_Q1.3660.97
252_K257_F1.3520.96
73_G121_E1.3490.96
105_L143_N1.3280.96
171_Y185_L1.3100.96
2_A20_D1.3060.95
133_I186_S1.3040.95
145_E151_G1.2990.95
24_I27_D1.2810.95
148_P185_L1.2620.95
72_D119_G1.2570.94
65_I91_I1.2500.94
75_P97_A1.2470.94
130_L135_I1.2320.94
154_L176_L1.2230.94
21_F90_N1.2060.93
10_S13_R1.2010.93
140_V161_S1.1990.93
54_Q219_T1.1850.92
108_K196_G1.1850.92
147_K150_K1.1770.92
60_R86_N1.1700.92
25_T80_T1.1670.92
239_A243_R1.1410.91
220_V224_V1.1330.91
146_L154_L1.1280.91
74_I97_A1.1270.90
15_G204_N1.1180.90
240_P243_R1.1110.90
3_I17_T1.1030.90
53_H216_I1.0970.89
107_P142_H1.0960.89
232_H241_I1.0930.89
173_L271_V1.0860.89
21_F203_I1.0790.88
53_H220_V1.0780.88
245_S255_L1.0710.88
105_L195_V1.0670.88
4_K18_T1.0590.88
6_Y16_M1.0560.87
226_N229_D1.0450.87
41_G54_Q1.0420.87
248_S255_L1.0390.86
12_G16_M1.0380.86
210_R214_K1.0220.86
28_K61_Q1.0210.86
232_H240_P1.0130.85
121_E130_L1.0060.85
211_S216_I1.0020.84
52_R225_M0.9970.84
223_S245_S0.9910.84
77_R97_A0.9900.84
129_A191_S0.9890.84
71_K96_Y0.9810.83
219_T232_H0.9750.83
38_H41_G0.9730.83
252_K255_L0.9730.83
266_S269_F0.9680.82
25_T81_V0.9590.82
267_D273_R0.9470.81
9_T12_G0.9460.81
121_E134_N0.9460.81
185_L269_F0.9390.80
232_H254_T0.9310.80
135_I164_V0.9290.80
170_K186_S0.9270.79
6_Y10_S0.9270.79
262_K267_D0.9220.79
228_N241_I0.9180.79
92_A110_I0.9130.78
199_Q202_L0.9120.78
236_E240_P0.9080.78
80_T112_V0.9060.78
25_T112_V0.9040.78
74_I100_E0.9000.77
24_I28_K0.9000.77
76_G102_R0.8930.77
10_S16_M0.8910.77
51_V54_Q0.8860.76
36_P61_Q0.8830.76
53_H217_R0.8800.76
167_K172_V0.8770.76
75_P117_M0.8740.75
6_Y13_R0.8730.75
80_T92_A0.8730.75
261_K264_N0.8700.75
135_I190_A0.8610.74
120_P130_L0.8490.73
171_Y269_F0.8480.73
24_I90_N0.8470.73
18_T21_F0.8460.73
223_S243_R0.8450.73
258_K275_K0.8400.72
248_S254_T0.8340.72
13_R17_T0.8290.71
4_K16_M0.8280.71
241_I247_M0.8250.71
241_I254_T0.8240.71
53_H249_P0.8230.71
19_S23_E0.8210.71
163_Q175_R0.8170.70
120_P134_N0.8150.70
44_N48_K0.8080.69
144_I155_V0.8060.69
118_S189_R0.8040.69
245_S254_T0.7980.68
119_G130_L0.7960.68
73_G117_M0.7960.68
33_L93_L0.7950.68
104_I142_H0.7940.68
6_Y15_G0.7860.67
53_H225_M0.7850.67
70_D100_E0.7820.67
164_V186_S0.7810.67
23_E90_N0.7810.67
232_H248_S0.7810.67
227_P236_E0.7780.67
49_L220_V0.7750.66
43_R47_G0.7730.66
20_D23_E0.7670.65
124_I130_L0.7630.65
117_M123_D0.7620.65
142_H191_S0.7580.64
248_S253_P0.7560.64
12_G15_G0.7550.64
223_S247_M0.7530.64
79_A94_I0.7410.63
76_G96_Y0.7400.63
88_S106_A0.7380.62
228_N255_L0.7370.62
155_V160_T0.7360.62
81_V91_I0.7350.62
256_G259_T0.7350.62
225_M229_D0.7350.62
110_I142_H0.7320.62
205_I210_R0.7320.62
62_Y86_N0.7300.62
110_I126_V0.7270.61
65_I80_T0.7250.61
240_P245_S0.7240.61
82_E103_Y0.7220.61
228_N245_S0.7220.61
71_K102_R0.7210.61
155_V174_V0.7200.61
57_G60_R0.7190.60
104_I107_P0.7190.60
3_I49_L0.7190.60
18_T203_I0.7160.60
142_H195_V0.7150.60
239_A247_M0.7140.60
21_F58_H0.7140.60
132_L174_V0.7130.60
37_L62_Y0.7130.60
137_V166_G0.7110.60
247_M253_P0.7090.59
17_T204_N0.7060.59
3_I19_S0.7040.59
84_D87_R0.6940.58
5_K17_T0.6940.58
17_T203_I0.6940.58
5_K9_T0.6910.57
76_G116_I0.6910.57
221_R224_V0.6910.57
75_P271_V0.6900.57
264_N267_D0.6890.57
2_A22_A0.6870.57
232_H255_L0.6860.57
161_S194_Q0.6850.57
69_R142_H0.6810.56
4_K13_R0.6780.56
227_P247_M0.6750.56
49_L53_H0.6740.55
123_D201_E0.6690.55
222_G232_H0.6670.55
240_P248_S0.6660.55
141_V144_I0.6660.55
51_V220_V0.6630.54
94_I196_G0.6620.54
99_G151_G0.6610.54
258_K273_R0.6570.54
44_N47_G0.6560.53
97_A115_E0.6560.53
16_M196_G0.6550.53
9_T16_M0.6540.53
237_G240_P0.6520.53
223_S255_L0.6510.53
81_V92_A0.6500.53
7_K125_K0.6490.53
120_P133_I0.6450.52
263_K266_S0.6450.52
54_Q57_G0.6440.52
63_R85_P0.6430.52
235_G238_R0.6390.52
270_I273_R0.6380.51
21_F25_T0.6380.51
6_Y17_T0.6360.51
8_P14_R0.6330.51
36_P60_R0.6310.51
5_K12_G0.6310.51
73_G120_P0.6300.51
94_I102_R0.6290.50
137_V167_K0.6250.50
94_I110_I0.6240.50
109_G179_G0.6240.50
69_R104_I0.6200.49
118_S129_A0.6190.49
164_V167_K0.6180.49
50_T148_P0.6170.49
55_G60_R0.6160.49
131_P187_A0.6150.49
53_H250_W0.6130.49
77_R113_G0.6090.48
40_K51_V0.6080.48
119_G189_R0.6050.48
123_D189_R0.6050.48
261_K268_K0.6040.48
263_K269_F0.6040.48
141_V162_A0.6030.48
213_W216_I0.6020.47
155_V177_N0.6010.47
49_L219_T0.6010.47
24_I81_V0.6000.47
45_N50_T0.6000.47
10_S14_R0.6000.47
69_R129_A0.5990.47
39_K54_Q0.5990.47
145_E149_G0.5970.47
42_G56_G0.5970.47
122_A134_N0.5970.47
81_V90_N0.5970.47
19_S196_G0.5930.46
47_G50_T0.5920.46
25_T28_K0.5890.46
232_H246_P0.5890.46
5_K15_G0.5880.46
272_R275_K0.5880.46
162_A176_L0.5870.46
80_T91_I0.5860.46
37_L40_K0.5850.46
17_T272_R0.5840.45
132_L141_V0.5820.45
44_N57_G0.5800.45
204_N238_R0.5800.45
183_M271_V0.5790.45
133_I172_V0.5780.45
166_G177_N0.5780.45
47_G56_G0.5780.45
93_L103_Y0.5770.45
137_V258_K0.5740.44
224_V247_M0.5740.44
120_P131_P0.5720.44
80_T101_K0.5710.44
24_I80_T0.5710.44
71_K74_I0.5710.44
4_K31_K0.5710.44
21_F24_I0.5690.44
80_T196_G0.5690.44
152_G191_S0.5680.44
19_S24_I0.5670.44
74_I261_K0.5670.44
29_P34_L0.5670.44
247_M254_T0.5670.44
27_D112_V0.5630.43
10_S22_A0.5630.43
88_S196_G0.5600.43
108_K202_L0.5530.42
74_I117_M0.5530.42
175_R258_K0.5500.42
172_V184_I0.5460.41
82_E85_P0.5460.41
219_T250_W0.5450.41
54_Q60_R0.5450.41
35_A62_Y0.5440.41
173_L186_S0.5430.41
42_G45_N0.5430.41
115_E214_K0.5410.41
19_S27_D0.5400.41
59_K157_S0.5380.40
13_R18_T0.5370.40
16_M204_N0.5350.40
264_N269_F0.5340.40
115_E268_K0.5330.40
161_S198_E0.5300.40
155_V161_S0.5290.39
81_V101_K0.5280.39
11_N165_L0.5270.39
52_R248_S0.5270.39
93_L101_K0.5260.39
166_G169_G0.5260.39
25_T177_N0.5240.39
112_V165_L0.5220.39
144_I184_I0.5210.39
58_H214_K0.5210.39
11_N15_G0.5190.38
32_S80_T0.5180.38
69_R118_S0.5180.38
124_I192_I0.5170.38
174_V181_V0.5150.38
6_Y9_T0.5140.38
5_K16_M0.5130.38
96_Y99_G0.5130.38
147_K153_Q0.5130.38
261_K269_F0.5120.38
203_I210_R0.5120.38
146_L174_V0.5120.38
229_D237_G0.5110.38
58_H211_S0.5100.37
198_E201_E0.5100.37
21_F28_K0.5070.37
130_L134_N0.5060.37
45_N51_V0.5060.37
108_K272_R0.5060.37
32_S101_K0.5050.37
150_K274_R0.5050.37
132_L164_V0.5050.37
80_T93_L0.5040.37
71_K99_G0.5040.37
16_M203_I0.5040.37
238_R274_R0.5030.37
157_S160_T0.5020.37
174_V273_R0.5020.37
88_S157_S0.5020.37
219_T249_P0.5010.36
105_L142_H0.5010.36
15_G239_A0.5000.36
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3j3wC 1 1 100 0.008 Contact Map
4rb6D 1 0.9892 100 0.012 Contact Map
4tp9C 1 0.0072 100 0.025 Contact Map
1vw3B 1 0.9892 100 0.031 Contact Map
3bboE 1 0.9567 100 0.032 Contact Map
1vq8A 1 0.8231 100 0.239 Contact Map
3j21B 1 0.8303 100 0.242 Contact Map
3j7yD 1 0.7978 100 0.247 Contact Map
4ujqD 1 0.8484 100 0.252 Contact Map
1vx7D 1 0.8375 100 0.254 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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